RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 033772
(112 letters)
>3bbo_X Ribosomal protein L27; large ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 198
Score = 116 bits (292), Expect = 2e-34
Identities = 78/103 (75%), Positives = 87/103 (84%), Gaps = 7/103 (6%)
Query: 1 MATA-SMSASLIGSFKGLSLSSSSSSSFLKGDFTVCPK-SVTVSLP---PTSPLPLTIES 55
MA A SMS +LIG+FKGLSLSS+SS FL+GD + PK S TV+LP +P+PLTIES
Sbjct: 1 MAMATSMSLNLIGAFKGLSLSSTSS--FLRGDLSFSPKTSFTVTLPLENLQAPIPLTIES 58
Query: 56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTK 98
AHKKGAGSTKNGRDS GQRLGVKI+GDQVAKPGAIIVRQRGTK
Sbjct: 59 AHKKGAGSTKNGRDSPGQRLGVKIYGDQVAKPGAIIVRQRGTK 101
>2zjr_T 50S ribosomal protein L27; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: b.84.4.1 PDB: 1nwx_U* 1nwy_U*
1sm1_U* 1xbp_U* 1y69_U 1yl3_3 2b66_0 2b9n_0 2b9p_0
2zjp_T* 2zjq_T 1nkw_U 3cf5_T* 3dll_T* 3pio_T* 3pip_T*
1pnu_U 1pny_U 1vor_X 1vou_X ...
Length = 91
Score = 87.4 bits (217), Expect = 3e-24
Identities = 30/43 (69%), Positives = 34/43 (79%)
Query: 56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTK 98
AHKKG GS+KNGRDS + LGVK FG +V K G I+VRQRGTK
Sbjct: 2 AHKKGVGSSKNGRDSNPKYLGVKKFGGEVVKAGNILVRQRGTK 44
>3v2d_0 50S ribosomal protein L27; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 2hgj_Z 2hgq_Z 2hgu_Z 2j01_0 2j03_0 2jl6_0 2jl8_0
2wdi_0 2wdj_0 2wdl_0 2wdn_0 2wh2_0 2wh4_0 2wrj_0 2wrl_0
2wro_0 2wrr_0 2x9s_0 2x9u_0 2xg0_0 ...
Length = 85
Score = 86.2 bits (214), Expect = 7e-24
Identities = 28/43 (65%), Positives = 35/43 (81%)
Query: 56 AHKKGAGSTKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTK 98
AHKKG GST+NGRDS+ +RLGVK + QV + G I+VRQRGT+
Sbjct: 2 AHKKGLGSTRNGRDSQAKRLGVKRYEGQVVRAGNILVRQRGTR 44
>2ftc_O L27MT, MRP-L27, mitochondrial 39S ribosomal protein L27;
mitochondrial ribosome, large ribosomal subunit,
ribosomal R ribosome; 12.10A {Bos taurus} PDB: 3iy9_O
Length = 69
Score = 80.0 bits (198), Expect = 1e-21
Identities = 18/44 (40%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 56 AHKKGAGSTKN-GRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTK 98
A KK GS+KN G S G+R G+K G II QR +
Sbjct: 1 ASKKSGGSSKNLGGKSSGRRQGIKKMEGHYVHAGNIIATQRHFR 44
>3r8s_W 50S ribosomal protein L27; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
2qam_W* 1p85_U 1p86_U 2awb_W 2gya_U 2gyc_U 2aw4_W
2i2v_W 2j28_W 2i2t_W* 2qao_W* 2qba_W* 2qbc_W* 2qbe_W
2qbg_W 2qbi_W* 2qbk_W* 2qov_W 2qox_W 2qoz_W* ...
Length = 76
Score = 70.0 bits (172), Expect = 1e-17
Identities = 23/35 (65%), Positives = 27/35 (77%)
Query: 64 TKNGRDSRGQRLGVKIFGDQVAKPGAIIVRQRGTK 98
T+NGRDS +RLGVK FG + G+IIVRQRGTK
Sbjct: 1 TRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTK 35
>2pbk_A KSHV protease; KSHV, KSHV protease, herpesvirus protease, viral
protease, V protein; 1.73A {Human herpesvirus} SCOP:
b.57.1.1 PDB: 1fl1_A 3njq_A*
Length = 228
Score = 29.5 bits (66), Expect = 0.17
Identities = 13/32 (40%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 30 GDFTVCPKSVTVSLPPTSPLPLTIESAHKKGA 61
+ + P VT LP T PLP+TIE H
Sbjct: 19 QELYLDPDQVTDYLPVTEPLPITIE--HLPET 48
>1vzv_A Assemblin, varicella-zoster virus protease; hydrolase, serine
protease, viral protease, varicella-zoster coat
protein; 3.00A {Human herpesvirus 3} SCOP: b.57.1.1
Length = 221
Score = 29.1 bits (65), Expect = 0.22
Identities = 12/32 (37%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 30 GDFTVCPKSVTVSLPPTSPLPLTIESAHKKGA 61
G+ + P+ V +LPPTS +P+ I+ H+K
Sbjct: 17 GELNITPEIVRSALPPTSKIPINID--HRKDC 46
>1at3_A Herpes simplex virus type II protease; serine protease, viral
protease, HSV2 protease; HET: DFP; 2.50A {Human
herpesvirus 2} SCOP: b.57.1.1
Length = 247
Score = 28.8 bits (64), Expect = 0.29
Identities = 10/33 (30%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 29 KGDFTVCPKSVTVSLPPTSPLPLTIESAHKKGA 61
G+ + P +V +LPP +PLP+ ++ H+
Sbjct: 35 PGELALDPDTVRAALPPENPLPINVD--HRARC 65
>1o6e_A Capsid protein P40; proteinase, beta-barrel, hydrolase, serine
protease, structu proteomics in europe, spine,
structural genomics; 2.3A {Human herpesvirus 4} SCOP:
b.57.1.1
Length = 235
Score = 28.3 bits (63), Expect = 0.46
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 2/26 (7%)
Query: 36 PKSVTVSLPPTSPLPLTIESAHKKGA 61
P +V LP PLPLT+E H A
Sbjct: 29 PLTVKSQLPLKKPLPLTVE--HLPDA 52
>2bon_A Lipid kinase; DAG kinase, transferase; 1.90A {Escherichia coli}
SCOP: e.52.1.2 PDB: 2jgr_A 2p1r_A
Length = 332
Score = 25.8 bits (57), Expect = 4.1
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 31 DFTVCPKSVTVSLPPTSPL 49
+ P ++ LPP PL
Sbjct: 304 HIEILPAALRCRLPPDCPL 322
>2xcs_B DNA gyrase subunit B, DNA gyrase subunit A; isomerase, type IIA
topoisomerase; HET: DNA 5UA RXV; 2.10A {Staphylococcus
aureus} PDB: 2xct_B* 2xcr_B* 2xcq_A* 2xco_A*
Length = 692
Score = 24.9 bits (55), Expect = 7.2
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 60 GAGSTKNGRDSRGQRL 75
GSTK+GRDSR Q +
Sbjct: 31 AGGSTKSGRDSRTQAI 46
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.313 0.128 0.361
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,532,830
Number of extensions: 79834
Number of successful extensions: 110
Number of sequences better than 10.0: 1
Number of HSP's gapped: 107
Number of HSP's successfully gapped: 14
Length of query: 112
Length of database: 6,701,793
Length adjustment: 76
Effective length of query: 36
Effective length of database: 4,579,797
Effective search space: 164872692
Effective search space used: 164872692
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (23.4 bits)